0.014145 0.008167 0.000000 0.000000 0.016333 0.000000 0.000000 0.000000 0.009640 0.00000 0.00000 0.00000 Cuff, M.E. Skarina, T. Onopriyenko, O. Edwards, A. Savchenko, A. Joachimiak, A. Midwest Center for Structural Genomics (MCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 70.696 70.696 103.736 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C5 H11 N O2 Se 196.106 n SELENOMETHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking O4 S -2 96.063 SULFATE ION non-polymer C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking TO BE PUBLISHED 0353 Structure of a HTH XRE-family like protein from Agrobacterium tumefaciens. 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2006-02-05 ADSC QUANTUM 315 SAGITALLY FOCUSED Si(111) MAD M x-ray 1 0.97948 1.0 0.97935 1.0 19-ID APS 0.97948, 0.97935 SYNCHROTRON APS BEAMLINE 19-ID 10927.922 Uncharacterized protein Atu1735 1 man polymer 96.063 SULFATE ION 6 syn non-polymer 92.094 GLYCEROL 2 syn non-polymer 18.015 water 68 nat water AGR_C_3184p no yes GH(MSE)TDEDSEANALADPDNPPLSAEQLASAPR(MSE)PRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQ PARAYLKIIAVDPEGTAAALRKGATGS GHMTDEDSEANALADPDNPPLSAEQLASAPRMPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQPARAYLKI IAVDPEGTAAALRKGATGS A APC6027 polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Agrobacterium Agrobacterium tumefaciens C58 Escherichia sample 33970 Atu1735, AGR_C_3184 176299 Agrobacterium tumefaciens str. 562 Escherichia coli modified BL21(DE3) Plasmid modified p11 1 3.42 64.05 VAPOR DIFFUSION, HANGING DROP 5.6 2M Ammonium sulfate, 0.2M K/Na tartrate, 0.1M Na citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K 291 Midwest Center for Structural Genomics MCSG PSI, Protein Structure Initiative repository Initial release Version format compliance Advisory Derived calculations Source and taxonomy Version format compliance 1 0 2007-05-29 1 1 2008-05-01 1 2 2011-07-13 BIOMOLECULE: 1 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 1 CHAIN(S). AUTHORS STATE THAT THE BIOLOGICAL UNIT OF THIS PROTEIN IS UNKNOWN. THE POTENTIAL TETRAMERIC ASSEMBLY SHOWN IN REMARK 350 IS PREDICTED BY THE ANALYSIS OF PROTEIN INTERFACES BASED ON THIS CRYSTAL STRUCTURE. Y RCSB Y RCSB 2007-04-30 REL REL SO4 SULFATE ION GOL GLYCEROL HOH water SO4 1 2 SO4 SO4 101 A SO4 2 2 SO4 SO4 102 A SO4 3 2 SO4 SO4 103 A SO4 4 2 SO4 SO4 104 A SO4 6 2 SO4 SO4 106 A SO4 7 2 SO4 SO4 107 A GOL 1 3 GOL GOL 201 A GOL 1 3 GOL GOL 202 A HOH 1 4 HOH HOH 203 A HOH 2 4 HOH HOH 204 A HOH 3 4 HOH HOH 205 A HOH 4 4 HOH HOH 206 A HOH 5 4 HOH HOH 207 A HOH 6 4 HOH HOH 208 A HOH 7 4 HOH HOH 209 A HOH 8 4 HOH HOH 210 A HOH 9 4 HOH HOH 211 A HOH 10 4 HOH HOH 212 A HOH 11 4 HOH HOH 213 A HOH 12 4 HOH HOH 214 A HOH 13 4 HOH HOH 215 A HOH 14 4 HOH HOH 216 A HOH 15 4 HOH HOH 217 A HOH 16 4 HOH HOH 218 A HOH 17 4 HOH HOH 219 A HOH 18 4 HOH HOH 220 A HOH 19 4 HOH HOH 221 A HOH 20 4 HOH HOH 222 A HOH 21 4 HOH HOH 223 A HOH 22 4 HOH HOH 224 A HOH 23 4 HOH HOH 225 A HOH 24 4 HOH HOH 226 A HOH 25 4 HOH HOH 227 A HOH 26 4 HOH HOH 228 A HOH 27 4 HOH HOH 229 A HOH 28 4 HOH HOH 230 A HOH 29 4 HOH HOH 231 A HOH 30 4 HOH HOH 232 A HOH 31 4 HOH HOH 233 A HOH 32 4 HOH HOH 234 A HOH 33 4 HOH HOH 235 A HOH 34 4 HOH HOH 236 A HOH 35 4 HOH HOH 237 A HOH 36 4 HOH HOH 238 A HOH 37 4 HOH HOH 239 A HOH 38 4 HOH HOH 240 A HOH 39 4 HOH HOH 241 A HOH 40 4 HOH HOH 242 A HOH 41 4 HOH HOH 243 A HOH 42 4 HOH HOH 244 A HOH 43 4 HOH HOH 245 A HOH 44 4 HOH HOH 246 A HOH 45 4 HOH HOH 247 A HOH 46 4 HOH HOH 248 A HOH 47 4 HOH HOH 249 A HOH 49 4 HOH HOH 250 A HOH 50 4 HOH HOH 251 A HOH 52 4 HOH HOH 252 A HOH 53 4 HOH HOH 253 A HOH 54 4 HOH HOH 254 A HOH 55 4 HOH HOH 255 A HOH 56 4 HOH HOH 256 A HOH 57 4 HOH HOH 257 A HOH 58 4 HOH HOH 258 A HOH 59 4 HOH HOH 259 A HOH 63 4 HOH HOH 260 A HOH 68 4 HOH HOH 261 A HOH 69 4 HOH HOH 262 A HOH 75 4 HOH HOH 263 A HOH 76 4 HOH HOH 264 A HOH 77 4 HOH HOH 265 A HOH 78 4 HOH HOH 266 A HOH 84 4 HOH HOH 267 A HOH 86 4 HOH HOH 268 A HOH 87 4 HOH HOH 269 A HOH 88 4 HOH HOH 270 A n 1 -1 A n 2 0 A n 3 1 A n 4 2 A n 5 3 A n 6 4 A n 7 5 A n 8 6 A n 9 7 A n 10 8 A n 11 9 A n 12 10 A n 13 11 A n 14 12 A n 15 13 A n 16 14 A n 17 15 A n 18 16 A n 19 17 A n 20 18 A n 21 19 A n 22 20 A n 23 21 A n 24 22 A n 25 23 A n 26 24 A n 27 25 A n 28 26 A n 29 27 A n 30 28 A n 31 29 A MSE 30 n 32 MSE 30 A PRO 31 n 33 PRO 31 A ARG 32 n 34 ARG 32 A ILE 33 n 35 ILE 33 A LYS 34 n 36 LYS 34 A ILE 35 n 37 ILE 35 A ILE 36 n 38 ILE 36 A ARG 37 n 39 ARG 37 A ARG 38 n 40 ARG 38 A ALA 39 n 41 ALA 39 A LEU 40 n 42 LEU 40 A LYS 41 n 43 LYS 41 A LEU 42 n 44 LEU 42 A THR 43 n 45 THR 43 A GLN 44 n 46 GLN 44 A GLU 45 n 47 GLU 45 A GLU 46 n 48 GLU 46 A PHE 47 n 49 PHE 47 A SER 48 n 50 SER 48 A ALA 49 n 51 ALA 49 A ARG 50 n 52 ARG 50 A TYR 51 n 53 TYR 51 A HIS 52 n 54 HIS 52 A ILE 53 n 55 ILE 53 A PRO 54 n 56 PRO 54 A LEU 55 n 57 LEU 55 A GLY 56 n 58 GLY 56 A THR 57 n 59 THR 57 A LEU 58 n 60 LEU 58 A ARG 59 n 61 ARG 59 A ASP 60 n 62 ASP 60 A TRP 61 n 63 TRP 61 A GLU 62 n 64 GLU 62 A GLN 63 n 65 GLN 63 A GLY 64 n 66 GLY 64 A ARG 65 n 67 ARG 65 A SER 66 n 68 SER 66 A GLU 67 n 69 GLU 67 A PRO 68 n 70 PRO 68 A ASP 69 n 71 ASP 69 A GLN 70 n 72 GLN 70 A PRO 71 n 73 PRO 71 A ALA 72 n 74 ALA 72 A ARG 73 n 75 ARG 73 A ALA 74 n 76 ALA 74 A TYR 75 n 77 TYR 75 A LEU 76 n 78 LEU 76 A LYS 77 n 79 LYS 77 A ILE 78 n 80 ILE 78 A ILE 79 n 81 ILE 79 A ALA 80 n 82 ALA 80 A VAL 81 n 83 VAL 81 A ASP 82 n 84 ASP 82 A PRO 83 n 85 PRO 83 A GLU 84 n 86 GLU 84 A GLY 85 n 87 GLY 85 A THR 86 n 88 THR 86 A ALA 87 n 89 ALA 87 A ALA 88 n 90 ALA 88 A ALA 89 n 91 ALA 89 A LEU 90 n 92 LEU 90 A ARG 91 n 93 ARG 91 A n 94 92 A n 95 93 A n 96 94 A n 97 95 A n 98 96 A n 99 97 A 4.0654 1.6966 0.7968 4.0375 0.2281 5.0941 0.3751 -0.3671 -0.1045 0.3664 -0.0809 -0.2228 0.1751 0.1834 -0.2942 -0.2037 -0.0742 -0.0435 -0.4355 -0.0405 -0.4700 refined 44.6426 3.0189 11.9951 X-RAY DIFFRACTION A 30 A 32 A 91 A 93 X-RAY DIFFRACTION 1 author_and_software_defined_assembly PISA 4 tetrameric software_defined_assembly PQS 1 monomeric 10260 -285 12930 A MSE 30 SELENOMETHIONINE A MSE 32 MET 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 4_655 -x+1,-y,z crystal symmetry operation 70.6960000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 8_555 x-y,-y,-z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 11_655 -x+y+1,y,-z crystal symmetry operation 70.6960000000 0.0000000000 0.0000000000 1 A HOH 223 J HOH 1 A HOH 225 J HOH 1 A HOH 269 J HOH 1 A GLY -1 A GLY 1 1 Y 1 A HIS 0 A HIS 2 1 Y 1 A MSE 1 A MSE 3 1 Y 1 A THR 2 A THR 4 1 Y 1 A ASP 3 A ASP 5 1 Y 1 A GLU 4 A GLU 6 1 Y 1 A ASP 5 A ASP 7 1 Y 1 A SER 6 A SER 8 1 Y 1 A GLU 7 A GLU 9 1 Y 1 A ALA 8 A ALA 10 1 Y 1 A ASN 9 A ASN 11 1 Y 1 A ALA 10 A ALA 12 1 Y 1 A LEU 11 A LEU 13 1 Y 1 A ALA 12 A ALA 14 1 Y 1 A ASP 13 A ASP 15 1 Y 1 A PRO 14 A PRO 16 1 Y 1 A ASP 15 A ASP 17 1 Y 1 A ASN 16 A ASN 18 1 Y 1 A PRO 17 A PRO 19 1 Y 1 A PRO 18 A PRO 20 1 Y 1 A LEU 19 A LEU 21 1 Y 1 A SER 20 A SER 22 1 Y 1 A ALA 21 A ALA 23 1 Y 1 A GLU 22 A GLU 24 1 Y 1 A GLN 23 A GLN 25 1 Y 1 A LEU 24 A LEU 26 1 Y 1 A ALA 25 A ALA 27 1 Y 1 A SER 26 A SER 28 1 Y 1 A ALA 27 A ALA 29 1 Y 1 A PRO 28 A PRO 30 1 Y 1 A ARG 29 A ARG 31 1 Y 1 A LYS 92 A LYS 94 1 Y 1 A GLY 93 A GLY 95 1 Y 1 A ALA 94 A ALA 96 1 Y 1 A THR 95 A THR 97 1 Y 1 A GLY 96 A GLY 98 1 Y 1 A SER 97 A SER 99 1 Y 65.677 0.90 0.45 0.00 0.90 0.00 -1.35 0.952 0.930 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.24382 0.19607 0.19831 0.19831 2.00 35.35 509 10139 10139 4.8 97.53 5.095 0.075 RANDOM LIKELY RESIDUAL 1 THROUGHOUT 0.00 -3 MAD 0.118 0.126 0.80 0.80 1.40 MAXIMUM LIKELIHOOD WITH PHASES MASK 2.00 35.35 68 611 42 0 501 0.015 0.022 586 1.450 2.045 798 4.268 5.000 71 30.974 21.481 27 13.769 15.000 105 17.649 15.000 9 0.112 0.200 81 0.006 0.020 428 0.207 0.200 271 0.307 0.200 382 0.123 0.200 54 0.184 0.200 25 0.124 0.200 9 0.834 1.500 347 1.312 2.000 542 2.356 3.000 268 3.856 4.500 253 0.396 0.31 2.052 34 616 20 83.12 38.6 1.95 35.35 2PPX 10649 10649 0 -3 0.049 1 11.9 97.5 1.95 2.05 2 0.347 1 5.9 81.3 refinement REFMAC 5.2.0019 data collection SBC-Collect data reduction HKL-3000 data scaling HKL-3000 phasing HKL-3000 phasing SHELXD model building SHELXE phasing MLPHARE phasing DM phasing SOLVE phasing RESOLVE model building ARP/wARP phasing CCP4 model building O model building Coot Uncharacterized protein Atu1735 Crystal structure of a HTH XRE-family like protein from Agrobacterium tumefaciens 1 N N 2 N N 2 N N 2 N N 2 N N 2 N N 2 N N 3 N N 3 N N 4 N N potential tetramer A PRO 31 A PRO 33 HELX_P A LEU 40 A LEU 42 1 1 10 A THR 43 A THR 45 HELX_P A HIS 52 A HIS 54 1 2 10 A PRO 54 A PRO 56 HELX_P A GLN 63 A GLN 65 1 3 10 A ASP 69 A ASP 71 HELX_P A ASP 82 A ASP 84 1 4 14 A ASP 82 A ASP 84 HELX_P A ARG 91 A ARG 93 1 5 10 covale 1.340 A MSE 30 A C MSE 32 1_555 A PRO 31 A N PRO 33 1_555 STRUCTURAL GENOMICS, UNKNOWN FUNCTION Agrobacterium tumefaciens, HTH-motif, XRE-family, structural genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION Q8UEM2_AGRT5 UNP 1 1 Q8UEM2 MTDEDSEANALADPDNPPLSAEQLASAPRMPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQGRSEPDQPARAYLKIIA VDPEGTAAALRKGAT 1 95 2PPX 1 95 Q8UEM2 A 1 3 97 1 CLONING ARTIFACT GLY -1 2PPX A Q8UEM2 UNP 1 1 CLONING ARTIFACT HIS 0 2PPX A Q8UEM2 UNP 2 1 MET MODIFIED RESIDUE MSE 1 2PPX A Q8UEM2 UNP 1 3 1 MET MODIFIED RESIDUE MSE 30 2PPX A Q8UEM2 UNP 30 32 1 CLONING ARTIFACT GLY 96 2PPX A Q8UEM2 UNP 98 1 CLONING ARTIFACT SER 97 2PPX A Q8UEM2 UNP 99 BINDING SITE FOR RESIDUE SO4 A 101 Software 5 BINDING SITE FOR RESIDUE SO4 A 102 Software 4 BINDING SITE FOR RESIDUE SO4 A 103 Software 7 BINDING SITE FOR RESIDUE SO4 A 104 Software 6 BINDING SITE FOR RESIDUE SO4 A 106 Software 4 BINDING SITE FOR RESIDUE SO4 A 107 Software 1 BINDING SITE FOR RESIDUE GOL A 201 Software 2 BINDING SITE FOR RESIDUE GOL A 202 Software 6 A ARG 37 A ARG 39 5 1_555 A ARG 38 A ARG 40 5 1_555 A LYS 41 A LYS 43 5 10_665 A HOH 228 J HOH 5 1_555 A HOH 247 J HOH 5 1_555 A GLU 45 A GLU 47 4 8_555 A ARG 59 A ARG 61 4 8_555 A ARG 65 A ARG 67 4 1_555 A HOH 205 J HOH 4 1_555 A SER 66 A SER 68 7 1_555 A GLU 67 A GLU 69 7 1_555 A ASP 69 A ASP 71 7 11_655 A ARG 73 A ARG 75 7 11_655 A HOH 211 J HOH 7 11_655 A HOH 217 J HOH 7 1_555 A HOH 242 J HOH 7 11_655 A HIS 52 A HIS 54 6 4_655 A GLN 70 A GLN 72 6 1_555 A ARG 73 A ARG 75 6 1_555 A HOH 215 J HOH 6 1_555 A HOH 257 J HOH 6 1_555 A HOH 260 J HOH 6 1_555 A LYS 34 A LYS 36 4 1_555 A ARG 38 A ARG 40 4 1_555 A HOH 252 J HOH 4 1_555 A HOH 261 J HOH 4 1_555 A ARG 50 A ARG 52 1 1_555 A ARG 50 A ARG 52 2 1_555 A ARG 91 A ARG 93 2 1_555 A ARG 32 A ARG 34 6 1_555 A HOH 212 J HOH 6 1_555 A HOH 256 J HOH 6 1_555 A HOH 257 J HOH 6 1_555 A HOH 265 J HOH 6 1_555 A HOH 266 J HOH 6 1_555 181 P 64 2 2